当前位置:首页 > 组学服务 > 基因组学服务 > 宏基因组测序

宏基因组测序

宏基因组测序,是对特定环境(或者特定生境)样品中的微生物群体基因组,进行序列的测定,以分析微生物群体基因组成及功能,解读微生物群体的多样性与丰度,探求微生物与环境,微生物与宿主之间的关系,发掘和研究新的、具有特定功能的基因。宏基因组测序研究避开了微生物分离培养的过程,扩展了微生物资源的利用空间,为研究微生物相互作用提供了有效工具。

宏基因组测序分为两种, 一种是对16s rRNA区段以样本中全部DNA为模板设计合计的PCR引物进行PCR扩增后再对扩增产物测序,另一种是对样本中全部DNA进行建库并测序。

 

 参考文献:

Surveying the microbiome of ants: Comparing 454 pyrosequencing with traditional methods to uncover bacterial diversity.  Kautz S, Rubin BE, Russell JA, Moreau CS.  (2012) Appl Environ Microbiol ePub:
View Publication

Metagenomic analysis of the microbiota from the crop of an invasive snail reveals a rich reservoir of novel genes.  Cardoso AM, Cavalcante JJ, Cantão ME, Thompson CE, Flatschart RB, Glogauer A, Scapin SM, Sade YB, Beltrão PJ, Gerber AL, Martins OB, Garcia ES, de Souza W, Vasconcelos AT.  (2012) PLoS One 7(11): e48505.
View Publication

Bacterial Flora of Dental Periradicular Lesions Analyzed by the 454-Pyrosequencing Technology.  Saber MH, Schwarzberg K, Alonaizan FA, Kelley ST, Sedghizadeh PP, Furlan M, Levy TA, Simon JH, Slots J.  (2012) J Endod 38(11): 1484-8.
View Publication

Effects of dietary fiber on the feline gastrointestinal metagenome.  Barry KA, Middelbos IS, Vester Boler BM, Dowd SE, Suchodolski JS, Henrissat B, Coutinho PM, White BA, Fahey GC, Swanson KS.  (2012) J Proteome Res ePub:
View Publication

Hybrid sequencing approach applied to human fecal metagenomic clone libraries revealed clones with potential biotechnological applications.  D?unková M, D'Auria G, Pérez-Villarroya D, Moya A.  (2012) PLoS One 7(10): e47654.
View Publication

Microbial community response during the iron fertilization experiment LOHAFEX.  Thiele S, Fuchs BM, Ramaiah N, Amann R.  (2012) Appl Environ Microbiol ePub:
View Publication

Nurture trumps nature in a longitudinal survey of salivary bacterial communities in twins from early adolescence to early adulthood.  Stahringer SS, Clemente JC, Corley RP, Hewitt J, Knights D, Walters WA, Knight R, Krauter KS.  (2012) Genome Research ePub:
View Publication

Fungal community on decomposing leaf litter undergoes rapid successional changes.  Voøíšková J, Baldrian P.  (2012) ISME Journal ePub:
View Publication

Characterization of the gut microbiome in non-alcoholic steatohepatitis (NASH) patients: A connection between endogenous alcohol and NASH.  Zhu L, Baker SS, Gill C, Liu W, Alkhouri R, Baker RD, Gill SR.  (2012) Hepatology ePub:
View Publication

Small Changes in pH Have Direct Effects on Marine Bacterial Community Composition: A Microcosm Approach.  Krause E, Wichels A, Giménez L, Lunau M, Schilhabel MB, Gerdts G.  (2012) PLoS One 7(10): e47035.
View Publication

The lung microbiome in moderate and severe chronic obstructive pulmonary disease.  Pragman AA, Kim HB, Reilly CS, Wendt C, Isaacson RE.  (2012) PLoS One 7(10): 7e47305.
View Publication

Deep Sequencing of Myxilla (Ectyomyxilla) methanophila, an Epibiotic Sponge on Cold-Seep Tubeworms, Reveals Methylotrophic, Thiotrophic, and Putative Hydrocarbon-Degrading Microbial Associations.  Arellano SM, Lee OO, Lafi FF, Yang J, Wang Y, Young CM, Qian PY.  (2012) Microbial Ecology ePub:
View Publication

High through put 16S rRNA gene-based pyrosequencing analysis of the fecal microbiota of high FCR and low FCR broiler growers.  Singh KM, Shah T, Deshpande S, Jakhesara SJ, Koringa PG, Rank DN, Joshi CG.  (2012) Mol Biol Rep ePub:
View Publication

Molecular Analysis of Bacterial Communities in Biofilms of a Drinking Water Clearwell.  Zhang M, Liu W, Nie X, Li C, Gu J, Zhang C.  (2012) Microbes Environ ePub:
View Publication

Microbiota of De-Novo Pediatric IBD: Increased Faecalibacterium Prausnitzii and Reduced Bacterial Diversity in Crohn's But Not in Ulcerative Colitis.  Hansen R, Russell RK, Reiff C, Louis P, McIntosh F, Berry SH, Mukhopadhya I, Bisset WM, Barclay AR, Bishop J, Flynn DM, McGrogan P, Loganathan S, Mahdi G, Flint HJ, El-Omar EM, Hold GL.  (2012) Am J Gastroenterol ePub:
View Publication

Pole-to-pole biogeography of surface and deep marine bacterial communities.  Ghiglione JF, Galand PE, Pommier T, Pedrós-Alió C, Maas EW, Bakker K, Bertilson S, Kirchman DL, Lovejoy C, Yager PL, Murray AE (2012) PNAS ePub:
View Publication

Estimation of metagenome size and structure in an experimental soil microbiota from low coverage next generation sequence data.  Frisli T, Haverkamp TH, Jakobsen KS, Stenseth NC, Rudi K. (2012) J Appl Microbiol ePub:
View Publication

Pyrosequencing of epizootic rabbit enteropathy inocula and rabbit caecal samples.  ybens N, Houeix J, Licois D, Mainil J, Marlier D.  (2012) Vet Journal ePub:
View Publication

Barcoded pyrosequencing analysis of the microbial community in a simulator of the human gastrointestinal tract showed a colon region-specific microbiota modulation for two plant-derived polysaccharide blends.  Marzorati M, Maignien L, Verhelst A, Luta G, Sinnott R, Kerckhof FM, Boon N, Van de Wiele T, Possemiers S.  (2012) Antonie Van Leeuwenhoek ePub:
View Publication

Characterization of the Fecal Microbiota Using High-Throughput Sequencing Reveals a Stable Microbial Community during Storage.  Carroll IM, Ringel-Kulka T, Siddle JP, Klaenhammer TR, Ringel Y.  (2012) PLoS One 7(10): e46953.
View Publication

Effects of nonmethane volatile organic compounds on microbial community of methanotrophic biofilter.  Kim TG, Lee EH, Cho KS. (2012) Appl Microbiol Biotechnol ePub:
View Publication

Accuracy of protist diversity assessments: morphology compared with cloning and direct pyrosequencing of 18S rRNA genes and ITS regions using the conspicuous tintinnid ciliates as a case study.  Bachy C, Dolan JR, López-García P, Deschamps P, Moreira D.  (2012) ISME Journal ePub:
View Publication

Use of cassette-electrode microbial fuel cell for wastewater treatment.  Miyahara M, Hashimoto K, Watanabe K.  (2012) J Biosci Bioeng pii: S1389-1723: (12)00371-4.
View Publication

Use of cassette-electrode microbial fuel cell for wastewater treatment.  Miyahara M, Hashimoto K, Watanabe K. (2012) J Biosci Bioeng pii: S1389-1723(12): 00371-4.
View Publication

Gut microbiota composition is correlated to grid floor induced stress and behavior in the BALB/c mouse.  Bangsgaard Bendtsen KM, Krych L, Sørensen DB, Pang W, Nielsen DS, Josefsen K, Hansen LH, Sørensen SJ, Hansen AK.  (2012) PLoS One 7(10): e46231.
View Publication

Correlating microbial community profiles with geochemical data in highly stratified sediments from the Arctic Mid-Ocean Ridge.  Jorgensen SL, Hannisdal B, Lanzén A, Baumberger T, Flesland K, Fonseca R, Ovreås L, Steen IH, Thorseth IH, Pedersen RB, Schleper C.  (2012) PNAS ePub:
View Publication

Metaproteome analysis and molecular genetics of rat intestinal microbiota reveals section and localisation resolved species distribution and enzymatic functionalities.  Haange SB, Oberbach A, Schlichting N, Hugenholtz F, Smidt H, von Bergen M, Till H, Seifert J.  (2012) J Proteome Res ePub:
View Publication

Geographical and ecological stability of the symbiotic mid-gut microbiota in European firebugs, Pyrrhocoris apterus (Hemiptera, Pyrrhocoridae).  Sudakaran S, Salem H, Kost C, Kaltenpoth M.  (2012) Mol Ecol ePub:
View Publication

The Adult Cystic Fibrosis Airway Microbiota Is Stable over Time and Infection Type, and Highly Resilient to Antibiotic Treatment of Exacerbations.  Fodor AA, Klem ER, Gilpin DF, Elborn JS, Boucher RC, Tunney MM, Wolfgang MC.  (2012) PLoS One 7(9): e45001.
View Publication

Effects of plant host species and plant community richness on streptomycete community structure.  Bakker MG, Bradeen JM, Kinkel LL.  (2012) FEMS Microbiol Ecol ePub:
View Publication

Acidobacterial community responses to agricultural management of soybean in Amazon forest soils.  Navarrete AA, Kuramae EE, de Hollander M, Pijl AS, van Veen JA, Tsai SM.  (2012) FEMS Microbiol Ecol ePub:
View Publication

Dysfunction of the intestinal microbiome in inflammatory bowel disease and treatment.  Morgan XC, Tickle TL, Sokol H, Gevers D, Devaney KL, Ward DV, Reyes JA, Shah SA, Leleiko N, Snapper SB, Bousvaros A, Korzenik J, Sands BE, Xavier RJ, Huttenhower C.  (2012) Genome Biology 13(9): R79.
View Publication

Culture-dependent and --independent investigations of microbial diversity on urinary catheters.  Xu Y, Moser C, Al-Soud WA, Sørensen S, Høiby N, Nielsen PH, Thomsen TR.  (2012) J Clin Microbiol ePub:
View Publication

Pyrosequencing-Based Analysis of the Microbiome Associated with the Horn Fly, Haematobia irritans.  Palavesam A, Guerrero FD, Heekin AM, Wang J, Dowd SE, Sun Y, Foil LD, Pérez de León AA.  (2012) PLoS One 7(9): e44390.
View Publication

ral metagenomics demonstrates that domestic pigs are a potential reservoir for Ndumu virus.  Masembe C, Michuki G, Onyango M, Rumberia C, Norling M, Bishop RP, Djikeng A, Kemp SJ, Orth A, Skilton RA, Ståhl K, Fischer A.  (2012) Virology J 9(1): 218.
View Publication

Murine Gut Microbiota and Transcriptome Are Diet Dependent.  Carlisle EM, Poroyko V, Caplan MS, Alverdy J, Morowitz MJ, Liu D.  (2012) Ann Surg ePub:
View Publication

Bacterial communities on food court tables and cleaning equipment in a shopping mall.  Dingsdag S, Coleman NV. (2012) Epidemiol Infect 1-5.:
View Publication

Molecular Characterisation of Gastrointestinal Microbiota of Children With Autism (With and Without Gastrointestinal Dysfunction) and Their Neurotypical Siblings.  Gondalia SV, Palombo EA, Knowles SR, Cox SB, Meyer D, Austin DW.  (2012) Autism Res ePub:
View Publication

Fungal diversity is not determined by mineral and chemical differences in serpentine substrates.  Daghino S, Murat C, Sizzano E, Girlanda M, Perotto S.  (2012) PLoS One 7(9): e44233.
View Publication

Deep sequencing reveals extensive variation in the gut microbiota of wild mosquitoes from Kenya.  Osei-Poku J, Mbogo CM, Palmer WJ, Jiggins FM.  (2012) Mol Ecol ePub:
View Publication

Organic Layer Serves as a Hotspot of Microbial Activity and Abundance in Arctic Tundra Soils.  Lee SH, Jang I, Chae N, Choi T, Kang H.  (2012) Microbial Ecology ePub:
View Publication

Chronic N-amended soils exhibit an altered bacterial community structure in Harvard Forest, MA, USA.  Turlapati SA, Minocha R, Bhiravarasa PS, Tisa LS, Thomas WK, Minocha SC.  (2012) FEMS Microbiol Ecol ePub:
View Publication

High-throughput sequencing reveals the incomplete, short-term, recovery of the infant gut microbiota following parenteral antibiotic treatment with ampicillin and gentamycin.  Fouhy F, Guinane CM, Hussey S, Wall R, Ryan CA, Dempsey EM, Murphy B, Ross RP, Fitzgerald GF, Stanton C, Cotter PD.  (2012) Antimicrob Agents Chemother ePub:
View Publication

Microbial culturomics: paradigm shift in the human gut microbiome study.  Lagier JC, Armougom F, Million M, Hugon P, Pagnier I, Robert C, Bittar F, Fournous G, Gimenez G, Maraninchi M, Trape JF, Koonin EV, La Scola B, Raoult D.  (2012) Clin Microbiol Infect ePub:
View Publication

The epiphytic microbiota of the globally widespread macroalga Cladophora glomerata (Chlorophyta, Cladophorales).  Zulkifly S, Hanshew A, Young EB, Lee P, Graham ME, Graham ME, Piotrowski M, Graham LE.  (2012) Am J Bot 99(9): 1541-52.
View Publication

The gut microbiome of kittens is affected by dietary protein:carbohydrate ratio and associated with blood metabolite and hormone concentrations.  Hooda S, Vester Boler BM, Kerr KR, Dowd SE, Swanson KS. (2012) Br J Nutr 1: 10
View Publication

Bacterial diversity from the source to the tap: a comparative study based on 16S rRNA-DGGE and culture-dependent methods.  Vaz-Moreira I, Egas C, Nunes OC, Manaia CM.  (2012) FEMS ePub:
View Publication

Microbial community dynamics of an urban drinking water distribution system subjected to phases of chloramination and chlorination treatments.  Hwang C, Ling F, Andersen GL, Lechevallier MW, Liu WT.  (2012) Appl Environ Microbiol ePub:
View Publication

The composition of phyllosphere fungal assemblages of European beech (Fagus sylvatica) varies significantly along an elevation gradient.  Cordier T, Robin C, Capdevielle X, Fabreguettes O, Desprez-Loustau ML, Vacher C.  (2012) New Phytologist ePub:
View Publication

New insights in gut microbiota establishment in healthy breast fed neonates.  Jost T, Lacroix C, Braegger CP, Chassard C.  (2012) PLoS One 7(8): e44595.
View Publication

Exploring Bacterial Diversity in Hospital Environments by GS-FLX Titanium Pyrosequencing.  Poza M, Gayoso C, Gómez MJ, Rumbo-Feal S, Tomás M, Aranda J, Fernández A, Bou G.  (2012) PLoS One 7(8): e44105.
View Publication

Prokaryotic Communities Differ Along a Geothermal Soil Photic Gradient.  Meadow JF, Zabinski CA.  (2012) Microb Ecol ePub:
View Publication

Ancient T-independence of mucosal IgX/A: gut microbiota unaffected by larval thymectomy in Xenopus laevis.  Mashoof S, Goodroe A, Du CC, Eubanks JO, Jacobs N, Steiner JM, Tizard I, Suchodolski JS, Criscitiello MF.  (2012) Mucosal Immunol ePub:
View Publication

Vertical distribution of microbial communities in a perennially stratified Arctic lake with saline, anoxic bottom waters.  Comeau AM, Harding T, Galand PE, Vincent WF, Lovejoy C.  (2012) Sci Rep 2: 604.
View Publication

Emission of Nitrous Oxide and Dinitrogen by Diverse Earthworm Families from Brazil and Resolution of Associated Denitrifying and Nitrate-Dissimilating Taxa.  Depkat-Jakob PS, Brown GG, Tsai SM, Horn MA, Drake HL.  (2012) FEMS Microbiol Ecol ePub:
View Publication

Lymphotoxin regulates commensal responses to enable diet-induced obesity.  Upadhyay V, Poroyko V, Kim TJ, Devkota S, Fu S, Liu D, Tumanov AV, Koroleva EP, Deng L, Nagler C, Chang EB, Tang H, Fu YX.  (2012) Nature Immunology ePub:
View Publication

Microbiome diversity in the bronchial tract of patients with chronic obstructive pulmonary disease.  Cabrera-Rubio R, Garcia-Núñez M, Setó L, Antó JM, Moya A, Monsó E, Mira A.  (2012) J Clin Microbiol ePub:
View Publication

Antibiotics in early life alter the murine colonic microbiome and adiposity.  Cho I, Yamanishi S, Cox L, Methé BA, Zavadil J, Li K, Gao Z, Mahana D, Raju K, Teitler I, Li H, Alekseyenko AV, Blaser MJ.  (2012) Nature ePub:
View Publication

Bacteria and diatom co-occurrence patterns in microbial mats from polar desert streams.  Stanish LF, O'Neill SP, Gonzalez A, Legg TM, Knelman J, McKnight DM, Spaulding S, Nemergut DR.  (2012) Environ Microbiol ePub:
View Publication

Dynamics of bacterial communities in two unpolluted soils after spiking with phenanthrene: soil type specific and common responders.  Ding GC, Heuer H, Smalla K.  (2012) Front Microbiol 3: 290.
View Publication

Enrichment and analysis of anode-respiring bacteria from diverse anaerobic inocula.  Miceli JF, Parameswaran P, Kang DW, Krajmalnik-Brown R, Torres CI.  (2012) Environ Sci Technol ePub:
View Publication

Unique Prokaryotic Consortia in Geochemically Distinct Sediments from Red Sea Atlantis II and Discovery Deep Brine Pools.  Siam R, Mustafa GA, Sharaf H, Moustafa A, Ramadan AR, Antunes A, Bajic VB, Stingl U, Marsis NG, Coolen MJ, Sogin M, Ferreira AJ, Dorry HE.  (2012) PLoS One 7(8): e42872.
View Publication

Long-term Cu exposure selects for Cu-tolerant bacterial communities with altered composition, but unaltered richness.  Berg J, Brandt KK, Al-Soud WA, Holm PE, Hansen LH, Sørensen SJ, Nybroe O.  (2012) Appl Environ Microbiol ePub:
View Publication

Stimulated bacterioplankton growth and selection for certain bacterial taxa in the vicinity of the ctenophore Mnemiopsis leidyi.  Dinasquet J, Granhag L, Riemann L.  (2012) Front Microbiol 3: 302.
View Publication

Compositional Stability of a Salivary Bacterial Population against Supragingival Microbiota Shift following Periodontal Therapy.  Yamanaka W, Takeshita T, Shibata Y, Matsuo K, Eshima N, Yokoyama T, Yamashita Y.  (2012) PLoS One 7(8): e42806.
View Publication

Bacterial diversity, community structure and potential growth rates along an estuarine salinity gradient.  Campbell BJ, Kirchman DL.  (2012) ISME Journal ePub:
View Publication

Distinct cutaneous bacterial assemblages in a sampling of South American Amerindians and US residents.  Blaser MJ, Dominguez-Bello MG, Contreras M, Magris M, Hidalgo G, Estrada I, Gao Z, Clemente JC, Costello EK, Knight R.  (2012) ISME Journal ePub:
View Publication

Yersinia pestis infection and laboratory conditions alter flea-associated bacterial communities.  Jones RT, Vetter SM, Montenieiri J, Holmes J, Bernhardt SA, Gage KL.  (2012) ISME Journal ePub:
View Publication

Analysis of the gut microbiota in the old order amish and its relation to the metabolic syndrome.  Zupancic ML, Cantarel BL, Liu Z, Drabek EF, Ryan KA, Cirimotich S, Jones C, Knight R, Walters WA, Knights D, Mongodin EF, Horenstein RB, Mitchell BD, Steinle N, Snitker S, Shuldiner AR, Fraser CM. (2012) PLoS One 7(8): e43052.
View Publication

Abiotic factors shape microbial diversity in Sonoran Desert soils.  Andrew DR, Fitak RR, Munguia-Vega A, Racolta A, Martinson VG, Dontsova K.  (2012) Appl Environ Microbiol ePub:
View Publication

The Relation between Oral Candida Load and Bacterial Microbiome Profiles in Dutch Older Adults.  Kraneveld EA, Buijs MJ, Bonder MJ, Visser M, Keijser BJ, Crielaard W, Zaura E.  (2012) PLoS One (8): e42770.
View Publication

Patterns of fungal communities among and within decaying logs, revealed by 454 sequencing.  Kubartová A, Ottosson E, Dahlberg A, Stenlid J.  (2012) Mol Ecol ePub:
View Publication

Communities of Arbuscular Mycorrhizal Fungi Detected in Forest Soil Are Spatially Heterogeneous but Do Not Vary throughout the Growing Season.  Davison J, Opik M, Zobel M, Vasar M, Metsis M, Moora M. (2012) PLoS One 7(8): e41938.
View Publication

Structural Changes of Gut Microbiota during Berberine-Mediated Prevention of Obesity and Insulin Resistance in High-Fat Diet-Fed Rats  Zhang X, Zhao Y, Zhang M, Pang X, Xu J, Kang C, Li M, Zhang C, Zhang Z, Zhang Y, Li X, Ning G, Zhao L. (2012) PLoS One 7(8): e42529.
View Publication

Defining the core Arabidopsis thaliana root microbiome.  Lundberg DS, Lebeis SL, Paredes SH, Yourstone S, Gehring J, Malfatti S, Tremblay J, Engelbrektson A, Kunin V, del Rio TG, Edgar RC, Eickhorst T, Ley RE, Hugenholtz P, Tringe SG, Dangl JL.  (2012) Nature 488(7409): 86-90.
View Publication

Pyrosequencing reveals spatial and species variations in bacterial communities associated with corals from the Red Sea.  Lee OO, Yang J, Bougouffa S, Wang Y, Batang Z, Tian R, Al-Suwailem A, Qian PY.  (2012) Appl Environ Microbiol ePub:
View Publication

Significant and persistent impact of timber harvesting on soil microbial communities in Northern coniferous forests.  Hartmann M, Howes CG, Vaninsberghe D, Yu H, Bachar D, Christen R, Henrik Nilsson R, Hallam SJ, Mohn WW.  (2012) ISME Journal ePub:
View Publication

Shaping reactor microbiomes to produce the fuel precursor n-butyrate from pretreated cellulosic hydrolysates.  Agler MT, Werner JJ, Iten LB, Dekker A, Cotta MA, Dien B, Angenent LT.  (2012) Environ Sci Technol ePub:
View Publication

Testing potential effects of Bt maize on mycorrhizal fungal communities via DNA- and RNA- based pyrosequencing and molecular fingerprinting.  Verbruggen E, Kuramae EE, Hillekens R, de Hollander M, Kiers ET, Röling WF, Kowalchuk GA, van der Heijden MG.  (2012) Appl Environ Microbiol ePub:
View Publication

Development of colonic microflora as assessed by pyrosequencing in dairy calves fed waste milk.  Edrington TS, Dowd SE, Farrow RF, Hagevoort GR, Callaway TR, Anderson RC, Nisbet DJ.  (2012) J Dairy Sci 95(8): 4519-25.
View Publication

Fungal soil communities in a young transgenic poplar plantation form a rich reservoir for fungal root communities.  Danielsen L, Thürmer A, Meinicke P, Buée M, Morin E, Martin F, Pilate G, Daniel R, Polle A, Reich M.  (2012) Ecol Evol 2(8): 1935-48.
View Publication

Revealing microbial community structures in large- and small-scale activated sludge systems by barcoded pyrosequencing of 16S rRNA gene.  Ranasinghe PD, Satoh H, Oshiki M, Oshima K, Suda W, Hattori M, Mino T.  (2012) Water Sci Technol 66(10): 2155-61.
View Publication

Metagenomic analysis of virulence-associated and antibiotic resistance genes of microbes in rumen of Indian buffalo (Bubalus bubalis).  Singh KM, Jakhesara SJ, Koringa PG, Rank DN, Joshi CG.  (2012) Gene ePub:
View Publication

Low iron availability in continuous in vitro colonic fermentations induces strong dysbiosis of the child gut microbial consortium and a decrease of main metabolites.  Dostal A, Fehlbaum S, Chassard C, Zimmermann MB, Lacroix C.  (2012) FEMS Microbiol Ecol ePub:
View Publication

Pyrosequencing analysis of eukaryotic and bacterial communities in faucet biofilms.  Liu R, Yu Z, Guo H, Liu M, Zhang H, Yang M.  (2012) Sci Total Environ 435-436C: 124-131.
View Publication